Basic Information
VIS ID
TVIS30009935
Fusion event
HIV-KDM6A integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chrX
Cytoband
p11.3
Reference genome
GRCh37/hg19
Start
44813252/44954007 (Hg38)
End
44813252/44954007 (Hg38)
Orient
-
Location type
Intronic
Target gene
KDM6A
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-6509-5p ; hsa-mir-6858-5p ; hsa-mir-4689 ; hsa-mir-1224-5p ; hsa-mir-3915 ; hsa-mir-526b-5p ; hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-6719-3p ; hsa-mir-4526 ; hsa-mir-3660 ; hsa-mir-6730-3p
Nearest miRNA
hsa-mir-1587/Upstream/5116394; hsa-let-7f-2/Downstream/792150;
Nearest TSS
ENST00000429181/Upstream/80292; ENST00000451692/Downstream/105275;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/79900, chrX-CpG: 20/Downstream/203725
Nearest cancer related gene
KDM6A(TSG, No orient, 0)
Upstream sequence
ttagccaggcgtggtggcgtgtgcctgtagtcccagccacttgagggggttgaagtgggaggagcacctaagcctgggaggtcaaggctgcagtgagctg
Downstream sequence
tgattgtgccactacactccagcctgggtgacagagtgagaccttgccttaaaaaaaaaaaaaTAATAATAATACTTAAGATTATTTTAATTGTAACTCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate